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v0.16 #54

Merged
merged 85 commits into from
Sep 18, 2024
Merged

v0.16 #54

merged 85 commits into from
Sep 18, 2024

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kjohnsen
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@kjohnsen kjohnsen commented Sep 5, 2024 •
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  • uses Brian units instead of floats with _unit prefixes---closes Remove implied units and just use units everywhere #38
  • updates dependencies (including support for numpy 2.0)---closes numpy 2.0 support #53
  • updated type annotations should speed up load times
  • removed ProcessingBlock API, replaced control and estimation classes with pure functions
  • fixed set_seed function
  • added Scope.to_neo and fixed Light.to_neo when two-photon
  • cleaned up/revamped tutorials
  • added IOProcessor.reset
  • added showcase to docs
  • added 2P action spectra to multiple opsins, updated plot_spectra

arnavt2955 and others added 30 commits January 19, 2024 01:43
@arnavt2955
Update t_ms and interval_ms
ea3150e
@arnavt2955
updates t in other files
8892069
@arnavt2955
updated t
d4a7274
@arnavt2955
changed more _ms
05978e0
@arnavt2955
Merge remote-tracking branch 'origin' into UsingBrianUnits
d5c5f03
@arnavt2955
added import
9f4add0
@arnavt2955
addes imports
ee04625
@arnavt2955
fixed base.py and made changes to lfp - still failing 10 cases
c77a52a
@arnavt2955
Created jupyteer notebook for calculating ratios
288a286
@arnavt2955
added ratio into opsin library and added 2p action spectra into spect…
efff6b6 
…rum variables for all opsins
@kjohnsen
progress on all_optical fig
aa0609a
@kjohnsen
improve action spectrum extrapolation
756bbf1
@kjohnsen
start Newman 15 with alternate opsins
521ac34
@kjohnsen
Merge remote-tracking branch 'origin' into validation2
23bf74b
@kjohnsen
update Overview doc
18ac155
@kjohnsen
finish newman15 validation w/ alternate opsins
e85ed03
@kjohnsen
Update paper plot style
a66da8d
@kjohnsen
style_plots_for_paper docstring
b6607b5
@kjohnsen
Merge branch 'master' of https://github.com/Sensory-Information-Proce…
e7897c5 
…ssing-Lab/Cleo into validation2
@kjohnsen
change Jupyter to Python for linguist
9e3bd1a
@kjohnsen
change OGB-1 name
7e4dd0f
@kjohnsen
add warning to scope when sensor not injected
8e121f0
@kjohnsen
add showcase to docs
f34b0b7
@kjohnsen
implement LIOP reset in _base_reset
5d14096
@kjohnsen
add showcase doc to index
1f67236
@kjohnsen
add _base_reset to sim.reset
7173b74
@kjohnsen
fresh run through of all-optical-fig notebook
4b32fb8
@kjohnsen
add README to notebooks, env info to all_optical_fig.ipynb
689a0f8
@kjohnsen
bump to v0.15.0
18e470d
@kjohnsen
remove images [skip ci]
cda9382
@kjohnsen kjohnsen mentioned this pull request Sep 5, 2024
Closed
@kjohnsen kjohnsen marked this pull request as ready for review September 17, 2024 21:54
@kjohnsen kjohnsen changed the title V0.16 v0.16 Sep 17, 2024
@kjohnsen kjohnsen merged commit 76c0736 into master Sep 18, 2024
12 checks passed
@kjohnsen kjohnsen deleted the v0.16 branch September 18, 2024 20:26
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numpy 2.0 support Remove implied units and just use units everywhere
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@kjohnsen @arnavt2955